Title: Drawing Survival Curves using 'ggplot2'
Description: Contains the function 'ggsurvplot()' for drawing easily beautiful
and 'ready-to-publish' survival curves with the 'number at risk' table
and 'censoring count plot'. Other functions are also available to plot
adjusted curves for `Cox` model and to visually examine 'Cox' model assumptions.
Author: Alboukadel Kassambara [aut, cre],
Marcin Kosinski [aut],
Przemyslaw Biecek [ctb],
Scheipl Fabian [ctb]
Maintainer: Alboukadel Kassambara <alboukadel.kassambara@gmail.com>
Diff between survminer versions 0.4.2 dated 2018-01-31 and 0.4.3 dated 2018-08-04
DESCRIPTION | 8 +- MD5 | 24 ++++---- NAMESPACE | 1 NEWS.md | 30 ++++++++++- R/ggforest.R | 7 +- R/ggsurvplot_combine.R | 4 - R/ggsurvplot_core.R | 3 - R/ggsurvplot_df.R | 33 ++++++++++-- inst/doc/Informative_Survival_Plots.html | 6 +- inst/doc/Playing_with_fonts_and_texts.html | 14 ++--- inst/doc/Specifiying_weights_in_log-rank_comparisons.html | 16 ++--- man/ggsurvplot_combine.Rd | 5 + man/ggsurvplot_df.Rd | 38 +++++++++++--- 13 files changed, 135 insertions(+), 54 deletions(-)
Title: Data and Variable Transformation Functions
Description: Collection of miscellaneous utility functions, supporting data
transformation tasks like recoding, dichotomizing or grouping variables,
setting and replacing missing values. The data transformation functions
also support labelled data, and all integrate seamlessly into a
'tidyverse'-workflow.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjmisc versions 2.7.3 dated 2018-06-20 and 2.7.4 dated 2018-08-04
DESCRIPTION | 21 - MD5 | 59 ++- NAMESPACE | 15 NEWS.md | 14 R/S3-methods.R | 22 + R/big_mark.R | 40 ++ R/frq.R | 28 + R/has_na.R |only R/num_to_fac.R |only R/row_sums.R | 94 ++++- R/set_na.R | 69 +++- R/to_value.R | 43 +- R/zap_inf.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/design_philosophy.html | 638 +++++++++++++--------------------------- inst/doc/exploringdatasets.html | 544 ++++++++++------------------------ man/big_mark.Rd | 26 + man/dicho.Rd | 3 man/frq.Rd | 10 man/group_str.Rd | 3 man/group_var.Rd | 3 man/has_na.Rd |only man/merge_imputations.Rd | 4 man/numeric_to_factor.Rd |only man/reexports.Rd | 1 man/row_sums.Rd | 73 ++-- man/set_na.Rd | 37 ++ man/split_var.Rd | 8 man/spread_coef.Rd | 3 man/std.Rd | 3 man/to_value.Rd | 13 tests/testthat/test-prcn.R |only 33 files changed, 825 insertions(+), 953 deletions(-)
Title: Optimally Robust Estimation for Regression-Type Models
Description: Optimally robust estimation for regression-type models using S4 classes and
methods.
Author: Matthias Kohl [cre, aut, cph],
Peter Ruckdeschel [aut, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between ROptRegTS versions 0.9.1 dated 2013-09-14 and 1.1.0 dated 2018-08-04
DESCRIPTION | 33 ++++++++++-------- MD5 | 60 +++++++++++++++++----------------- NAMESPACE | 5 ++ R/AllClass.R | 8 ++-- R/Av1CondContIC.R | 14 +++---- R/Av1CondTotalVarIC.R | 36 ++++++++++---------- R/Av2CondContIC.R | 20 +++++------ R/CondContIC.R | 14 +++---- R/CondIC.R | 6 ++- R/CondTotalVarIC.R | 16 ++++----- R/ContIC.R | 14 +++---- R/getAsRiskRegTS.R | 17 +++++---- R/getFiRiskRegTS.R | 20 +++++------ R/getFixRobRegTypeIC_fiUnOvShoot.R | 10 ++--- R/getIneffDiff.R | 12 +++--- R/getInfCentRegTS.R | 48 +++++++++++++++------------ R/getInfClipRegTS.R | 2 - R/getInfGammaRegTS.R | 8 ++-- R/getInfRobRegTypeIC_asBias.R | 12 +++--- R/getInfRobRegTypeIC_asCov.R | 36 ++++++++++---------- R/getInfRobRegTypeIC_asGRisk_c1.R | 12 +++--- R/getInfRobRegTypeIC_asGRisk_v1.R | 6 +-- R/getInfRobRegTypeIC_asUnOvShoot.R | 10 ++--- R/getInfStandRegTS.R | 8 ++-- R/leastFavorableRadius.R | 38 ++++++++++++++------- R/radiusMinimaxIC.R | 32 ++++++++++++------ inst/NEWS | 39 ++++++++++++++++++---- inst/TOBEDONE | 5 ++ inst/scripts/NormLinRegAdaption.R | 4 +- inst/scripts/NormLinRegScale.R | 9 ++--- inst/scripts/UnderOverShootRiskCond.R | 10 ++--- 31 files changed, 317 insertions(+), 247 deletions(-)
Title: Update and Manipulate Rd Documentation Objects
Description: Functions for manipulation of R documentation objects,
including functions reprompt() and ereprompt() for updating 'Rd'
documentation for functions, methods and classes; 'Rd' macros for
citations and import of references from 'bibtex' files for use in
'Rd' files and 'roxygen2' comments; and many functions for
manipulation of references and Rd files.
Author: Georgi N. Boshnakov [aut, cre],
Duncan Murdoch [ctb]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between Rdpack versions 0.8-0 dated 2018-05-24 and 0.9-0 dated 2018-08-04
DESCRIPTION | 10 MD5 | 51 ++- NAMESPACE | 5 NEWS.md | 61 ++++ R/bib.R | 181 ++++++++++--- R/runexamples.R |only README.md | 96 ++++-- build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 10 inst/auto/REFERENCES.el | 3 inst/doc/Inserting_bibtex_references.Rnw | 85 ++---- inst/doc/Inserting_bibtex_references.pdf |binary inst/doc/Inserting_figures_and_evaluated_examples.R |only inst/doc/Inserting_figures_and_evaluated_examples.Rnw |only inst/doc/Inserting_figures_and_evaluated_examples.pdf |only man/Rdpack-package.Rd | 95 ++++++ man/c_Rd.Rd | 45 +-- man/deparse_usage.Rd | 17 - man/get_sig_text.Rd | 7 man/insert_all_ref.Rd | 2 man/macros/refmacros.Rd | 13 man/macros/refmacros.RdSav |only man/makeVignetteReference.Rd | 2 man/set_Rdpack_bibstyle.Rd |only vignettes/Inserting_bibtex_references.Rnw | 85 ++---- vignettes/Inserting_bibtex_references.org | 36 ++ vignettes/Inserting_figures_and_evaluated_examples.Rnw |only vignettes/Inserting_figures_and_evaluated_examples.org |only vignettes/auto/Inserting_bibtex_references.el | 85 +++--- vignettes/auto/Inserting_figures_and_evaluated_examples.el |only 31 files changed, 629 insertions(+), 260 deletions(-)
Title: 'd3.js' Utilities for R
Description: Provides a suite of functions to help ease the use of 'd3.js' in R.
These helpers include 'htmltools::htmlDependency' functions, hierarchy
builders, and conversion tools for 'partykit', 'igraph,' 'table',
and 'data.frame' R objects into the 'JSON' that 'd3.js' expects.
Author: Mike Bostock [aut, cph] (d3.js library in htmlwidgets/lib,
http://d3js.org),
Kent Russell [aut, cre] (R interface),
Gregor Aisch [aut, cph] (d3-jetpack creator,
https://github.com/gka/d3-jetpack),
Adam Pearce [aut] (core contributor to d3-jetpack),
Ben Ortiz [ctb]
Maintainer: Kent Russell <kent.russell@timelyportfolio.com>
Diff between d3r versions 0.8.2 dated 2018-07-01 and 0.8.3 dated 2018-08-04
DESCRIPTION | 13 ++++++++----- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/dependencies.R | 8 ++++---- README.md | 2 +- 5 files changed, 21 insertions(+), 14 deletions(-)
Title: Parametric Voice Synthesis
Description: Tools for sound synthesis and acoustic analysis.
Performs parametric synthesis of sounds with harmonic and noise components
such as animal vocalizations or human voice. Also includes tools for
spectral analysis, pitch tracking, audio segmentation, self-similarity
matrices, and morphing.
Author: Andrey Anikin [aut, cre]
Maintainer: Andrey Anikin <rty.anik@rambler.ru>
Diff between soundgen versions 1.2.0 dated 2018-03-06 and 1.2.1 dated 2018-08-04
DESCRIPTION | 8 MD5 | 103 ++++----- NAMESPACE | 1 NEWS | 19 + R/analyze.R | 49 +++- R/formants.R | 33 ++- R/matchPars.R | 5 R/optimize.R | 5 R/presets.R | 25 +- R/rolloff.R | 14 + R/segment.R | 107 ++++------ R/soundgen.R | 53 ++++- R/source.R | 368 ++++++++++++++++++++-------------- R/spectrogram.R | 6 R/utilities_analyze.R | 39 ++- R/utilities_math.R | 2 R/utilities_soundgen.R | 235 ++++++++++++++++------ build/vignette.rds |binary data/defaults.rda |binary data/permittedValues.rda |binary data/presets.rda |binary inst/CITATION | 26 +- inst/doc/acoustic_analysis.R | 70 +++++- inst/doc/acoustic_analysis.Rmd | 117 ++++++++--- inst/doc/acoustic_analysis.html | 229 ++++++++++++++------- inst/doc/sound_generation.R | 60 ++++- inst/doc/sound_generation.Rmd | 109 +++++++--- inst/doc/sound_generation.html | 400 ++++++++++++++++++++++++++++++++------ inst/shiny/soundgen_main/server.R | 17 - inst/shiny/soundgen_main/ui.R | 4 man/addFormants.Rd | 6 man/analyze.Rd | 41 +++ man/beat.Rd | 10 man/compareSounds.Rd | 5 man/crossFade.Rd | 44 +++- man/defaults.Rd | 2 man/estimateVTL.Rd | 6 man/fade.Rd | 2 man/flatEnv.Rd | 19 + man/generateHarmonics.Rd | 16 - man/generateNoise.Rd | 115 +++++++--- man/isCentral.localMax.Rd | 4 man/optimizePars.Rd | 5 man/reportTime.Rd | 11 - man/scaleNoiseAnchors.Rd | 13 - man/schwa.Rd | 14 - man/segment.Rd | 13 - man/segmentFolder.Rd | 5 man/soundgen.Rd | 28 +- man/spectrogram.Rd | 2 man/wiggleGC.Rd |only vignettes/acoustic_analysis.Rmd | 117 ++++++++--- vignettes/sound_generation.Rmd | 109 +++++++--- 53 files changed, 1873 insertions(+), 818 deletions(-)
Title: Plotting Methods for 'simmer'
Description: A set of plotting methods for 'simmer' trajectories and simulations.
Author: Iñaki Ucar [aut, cph, cre] (<https://orcid.org/0000-0001-6403-5550>),
Bart Smeets [aut, cph]
Maintainer: Iñaki Ucar <i.ucar86@gmail.com>
Diff between simmer.plot versions 0.1.13 dated 2018-03-02 and 0.1.14 dated 2018-08-04
DESCRIPTION | 6 MD5 | 22 +- NEWS.md | 7 R/plot.arrivals.R | 12 + R/plot.attributes.R | 11 - R/plot.resources.R | 30 ++ R/simmer.plot.R | 3 build/vignette.rds |binary inst/doc/plot.simmer.html | 362 +++++++++++++++++++++++++++-------- inst/doc/plot.trajectory.html | 351 ++++++++++++++++++++++++++------- man/plot.mon.Rd | 30 ++ tests/testthat/test-plot-resources.R | 18 + 12 files changed, 678 insertions(+), 174 deletions(-)
Title: Phylogenetic ANalyses of DiversificAtion
Description: Implements macroevolutionary analyses on phylogenetic trees. See
Morlon et al. (2010) <DOI:10.1371/journal.pbio.1000493>, Morlon et al. (2011)
<DOI:10.1073/pnas.1102543108>, Condamine et al. (2013) <DOI:10.1111/ele.12062>,
Morlon et al. (2014) <DOI:10.1111/ele.12251>, Manceau et al. (2015) <DOI:10.1111/ele.12415>,
Lewitus & Morlon (2016) <DOI:10.1093/sysbio/syv116>, Drury et al. (2016) <DOI:10.1093/sysbio/syw020>,
Manceau et al. (2016) <DOI:10.1093/sysbio/syw115>, Clavel & Morlon (2017) <DOI:10.1073/pnas.1606868114>,
Drury et al. (2017) <DOI:10.1093/sysbio/syx079>, Lewitus & Morlon (2017) <DOI:10.1093/sysbio/syx095>,
Drury et al. (2018) <DOI:10.1371/journal.pbio.2003563> and Clavel et al. (2018) <DOI:10.1093/sysbio/syy045>.
Author: Hélène Morlon [aut, cre, cph],
Eric Lewitus [aut, cph],
Fabien Condamine [aut, cph],
Marc Manceau [aut, cph],
Julien Clavel [aut, cph],
Jonathan Drury [aut, cph]
Maintainer: Hélène Morlon <morlon@biologie.ens.fr>
Diff between RPANDA versions 1.3 dated 2017-04-11 and 1.4 dated 2018-08-04
DESCRIPTION | 31 +++--- MD5 | 122 +++++++++++++++++--------- NAMESPACE | 20 +++- R/CreateClassObject.R |only R/CreateGeoObject.R | 2 R/CreateGeobyClassObject.R |only R/GIC.R |only R/JSDtree.R | 4 R/base_sgd.R | 1 R/fit_t_comp.R | 3 R/fit_t_comp_subgroup.r |only R/fit_t_env.R | 61 ++++++++----- R/fit_t_pl.R |only R/likelihood_subgroup_model.R |only R/likelihood_t_env.R | 15 ++- R/phyl.pca_pl.R |only R/print.fit_pl.R |only R/sim.divergence.geo.R | 39 ++++---- R/sim_env_bd.r |only R/spectR.R | 173 +++++++++++++++++++------------------ R/trimSimmap.R |only R/utils.R |only README.md | 12 +- data/Anolis.data.rda |binary data/BGB.examples.rda |binary data/Balaenopteridae.rda |binary data/Calomys.rda |binary data/Cetacea.rda |binary data/InfTemp.rda |binary data/Phocoenidae.rda |binary data/Phyllostomidae.rda |binary data/Phyllostomidae_genera.rda |binary data/co2.rda |only data/co2_res.rda |only data/coccolithophore.rda |only data/d13c.rda |only data/foraminifera.rda |only data/greenalgae.rda |only data/landplant.rda |only data/ostracoda.rda |only data/radiolaria.rda |only data/redalgae.rda |only data/sealevel.rda |only data/silica.rda |only inst/CITATION | 2 man/CreateClassObject.Rd |only man/CreateGeoObject.Rd | 2 man/CreateGeoObject_BioGeoBEARS.Rd | 2 man/CreateGeobyClassObject.Rd |only man/GIC.Rd |only man/Posdef.Rd |only man/RPANDA-package.Rd | 2 man/ancestral.Rd |only man/co2.Rd |only man/co2_res.Rd |only man/coccolithophore.Rd |only man/d13c.Rd |only man/fit_t_comp.Rd | 9 + man/fit_t_comp_subgroup.Rd |only man/fit_t_env.Rd | 35 +++++-- man/fit_t_pl.Rd |only man/foraminifera.Rd |only man/gic_criterion.Rd |only man/greenalgae.Rd |only man/landplant.Rd |only man/likelihood_subgroup_model.Rd |only man/likelihood_t_DD.Rd | 2 man/likelihood_t_DD_geog.Rd | 2 man/likelihood_t_MC.Rd | 2 man/likelihood_t_MC_geog.Rd | 2 man/likelihood_t_env.Rd | 2 man/lines.fit_t.env.Rd | 2 man/ostracoda.Rd |only man/phyl.pca_pl.Rd |only man/plot.fit_t.env.Rd | 7 - man/radiolaria.Rd |only man/redalgae.Rd |only man/sealevel.Rd |only man/silica.Rd |only man/sim.convergence.geo.Rd | 2 man/sim.divergence.geo.Rd | 2 man/sim_env_bd.Rd |only man/sim_t_comp.Rd | 2 man/sim_t_env.Rd | 2 man/spectR.Rd | 4 85 files changed, 349 insertions(+), 217 deletions(-)
Title: Plot Flow Charts According to the "PRISMA" Statement
Description: Plot a PRISMA <http://prisma-statement.org/> flow
chart describing the identification, screening, eligibility and
inclusion or studies in systematic reviews. PRISMA is an
evidence-based minimum set of items for reporting in systematic
reviews and meta-analyses. PRISMA focuses on the reporting of reviews
evaluating randomized trials, but can also be used as a basis for
reporting systematic reviews of other types of research, particularly
evaluations of interventions.
Author: Jack O. Wasey [aut, cre, cph]
Maintainer: Jack O. Wasey <jack@jackwasey.com>
Diff between PRISMAstatement versions 1.0.2 dated 2018-07-19 and 1.0.3 dated 2018-08-04
DESCRIPTION | 8 - MD5 | 22 ++--- NEWS.md | 12 ++ R/prisma.r | 146 +++++++++++++++++++++++++++------- README.md | 12 -- inst/doc/PRISMA.R | 26 ++++++ inst/doc/PRISMA.Rmd | 38 ++++++++ inst/doc/PRISMA.html | 140 +++++++++++++++++++++----------- man/figures/README-buildexample-1.png |binary man/prisma.Rd | 40 +++++++-- tests/testthat/test-prisma.r | 36 ++++++++ vignettes/PRISMA.Rmd | 38 ++++++++ 12 files changed, 409 insertions(+), 109 deletions(-)
More information about PRISMAstatement at CRAN
Permanent link
Title: Simulate and Visualize Kendall Random Walks and Related
Distributions
Description: Kendall random walks are a continuous-space Markov chains generated
by the Kendall generalized convolution. This package provides tools
for simulating these random walks and studying distributions
related to them. For more information about Kendall random walks see Jasiulis-Gołdyn (2014) <arXiv:1412.0220>.
Author: Mateusz Staniak [aut, cre]
Maintainer: Mateusz Staniak <mateusz.staniak@math.uni.wroc.pl>
Diff between kendallRandomWalks versions 0.9.3 dated 2018-07-10 and 0.9.4 dated 2018-08-04
DESCRIPTION | 8 +-- MD5 | 32 +++++++------- NAMESPACE | 3 + NEWS.md | 10 +++- R/simulations_kendall_rw.R | 60 +++++++++++++++++++++++++-- README.md | 2 build/vignette.rds |binary inst/doc/behaviour.R | 50 +++++++++++++++++----- inst/doc/behaviour.Rmd | 51 +++++++++++++++++------ inst/doc/behaviour.html | 84 ++++++++++++++++++++++---------------- inst/doc/kendall_rws.html | 36 ++++++++-------- man/plot.kendall_summary.Rd |only man/print.kendall_summary.Rd |only man/simulateOneTrajectory.Rd | 4 - man/simulate_kendall_rw.Rd | 4 - man/summarise_kendall_rw.Rd | 2 tests/testthat/test_simulations.R | 8 +++ vignettes/behaviour.Rmd | 51 +++++++++++++++++------ 18 files changed, 284 insertions(+), 121 deletions(-)
More information about kendallRandomWalks at CRAN
Permanent link
Title: Boosting Functional Regression Models
Description: Regression models for functional data, i.e., scalar-on-function,
function-on-scalar and function-on-function regression models, are fitted
by a component-wise gradient boosting algorithm.
Author: Sarah Brockhaus [aut, cre],
David Ruegamer [aut],
Torsten Hothorn [ctb],
with contributions by many others (see inst/CONTRIBUTIONS) [ctb]
Maintainer: Sarah Brockhaus <Sarah.Brockhaus@stat.uni-muenchen.de>
Diff between FDboost versions 0.3-1 dated 2018-05-10 and 0.3-2 dated 2018-08-04
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/FDboost.R | 3 ++- R/crossvalidation.R | 5 ++--- build/vignette.rds |binary inst/NEWS.Rd | 10 +++++++++- inst/doc/FLAM_canada.pdf |binary inst/doc/FLAM_fuel.pdf |binary inst/doc/FLAM_viscosity.pdf |binary man/applyFolds.Rd | 4 +--- tests/general_tests.R | 16 +++++++++++++--- 11 files changed, 41 insertions(+), 25 deletions(-)
Title: Analyse Audio Recordings and Automatically Extract Animal
Vocalizations
Description: Contains all the necessary tools to process audio recordings of
various formats (e.g., WAV, WAC, MP3, ZC), filter noisy files,
display audio signals, detect and extract automatically acoustic
features for further analysis such as classification.
Author: Jean Marchal [aut, cre],
Francois Fabianek [aut],
Christopher Scott [aut],
Chris Corben [ctb, cph] (Read ZC files, original C code),
Peter Wilson [ctb, cph] (Read ZC files, original R code),
Wildlife Acoustics, Inc. [ctb, cph] (Read WAC files, original C code),
WavX Inc. [cph]
Maintainer: Jean Marchal <jean.marchal@wavx.ca>
Diff between bioacoustics versions 0.1.2 dated 2018-06-09 and 0.1.3 dated 2018-08-04
DESCRIPTION | 8 MD5 | 48 +-- NEWS.md | 16 - R/BatBioacoustics.R | 14 R/BatClassify.R | 9 R/RcppExports.R | 46 +-- README.md | 108 +++---- build/vignette.rds |binary configure | 224 +++++++++++---- configure.ac | 27 + inst/doc/introduction.R | 4 inst/doc/introduction.Rmd | 648 ++++++++++++++++++++++----------------------- inst/doc/introduction.html | 44 +++ inst/doc/tutorial.R |only inst/doc/tutorial.Rmd |only inst/doc/tutorial.html |only man/blob_detection.Rd | 14 man/myotis.Rd | 1 man/plot_zc.Rd | 6 man/threshold_detection.Rd | 20 - src/Makevars.win | 4 src/RcppExports.cpp | 22 - src/bat_bioacoustics.cpp | 47 +-- src/bat_classify.cpp | 7 tools/winlibs.R | 15 - vignettes/introduction.Rmd | 648 ++++++++++++++++++++++----------------------- vignettes/tutorial.Rmd |only 27 files changed, 1103 insertions(+), 877 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-25 1.5-1
2018-02-21 1.5-0
2017-02-01 1.4-0
2016-11-24 1.3-2
2016-11-14 1.3
2016-11-13 1.2
2016-11-12 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-03-08 0.6.2
2016-03-07 0.6.1
2015-12-31 0.6.0
2015-10-12 0.5.0
2015-08-26 0.4.0
2015-08-26 0.4.1
2015-07-25 0.3.4
2015-07-21 0.3.3
2015-07-17 0.3.2
2015-07-15 0.3.1
2015-07-14 0.3.0
Title: Data Sets for Mathematical Statistics with Resampling in R
Description: Package of data sets from "Mathematical Statistics
with Resampling in R" (1st Ed. 2011, 2nd Ed. 2018) by Laura Chihara and Tim Hesterberg.
Author: Laura Chihara [aut],
Tim Hesterberg [aut],
Albert Y. Kim [cre]
Maintainer: Albert Y. Kim <albert.ys.kim@gmail.com>
Diff between resampledata versions 0.2.0 dated 2016-08-17 and 0.3.0 dated 2018-08-04
DESCRIPTION | 10 +- MD5 | 130 +++++++++++++++++++++++-------------- NEWS.md | 4 + R/data.R | 158 +++++++++++++++++++++++++++++++++++++++++++++- R/resampledata.R | 6 - data/ChiMarathonMen.rda |only data/Diving2017.rda |only data/Groceries.rda |only data/ILBoys.rda |only data/MathAnxiety.rda |only data/MobileAds.rda |only data/NBA1617.rda |only data/Nasdaq.rda |only data/Olympics2012.rda |only data/Quetzal.rda |only data/RangersTwins2016.rda |only data/Recidivism.rda |only data/Salaries.rda |only data/Skateboard.rda |only data/wafers.rda |only inst/CITATION | 9 +- man/Alelager.Rd | 1 man/Bangladesh.Rd | 1 man/Batters2005.Rd | 1 man/Beerwings.Rd | 1 man/BookPrices.Rd | 1 man/Bushmeat.Rd | 1 man/Bushmeat2.Rd | 1 man/Cameras.Rd | 1 man/Cereals.Rd | 1 man/Challenger.Rd | 1 man/ChiMarathonMen.Rd |only man/Cuckoos.Rd | 1 man/Diving2017.Rd |only man/Fatalities.Rd | 1 man/FishMercury.Rd | 1 man/FlightDelays.Rd | 1 man/GSS2002.Rd | 1 man/GSS2006.Rd | 1 man/Girls2004.Rd | 5 - man/Groceries.Rd |only man/ILBoys.Rd |only man/IceCream.Rd | 1 man/Illiteracy.Rd | 1 man/Lottery.Rd | 1 man/MathAnxiety.Rd |only man/Maunaloa.Rd | 1 man/MnGroundwater.Rd | 1 man/MobileAds.Rd |only man/NBA1617.Rd |only man/NCBirths2004.Rd | 1 man/Nasdaq.Rd |only man/Olympics2012.Rd |only man/Phillies2009.Rd | 1 man/Pitchers2005.Rd | 1 man/Quakes.Rd | 1 man/Quetzal.Rd |only man/RangersTwins2016.Rd |only man/Reading.Rd | 1 man/Recidivism.Rd |only man/Salaries.Rd |only man/Sat2008.Rd | 1 man/Service.Rd | 1 man/Skateboard.Rd |only man/Skating2010.Rd | 1 man/Spruce.Rd | 1 man/Starcraft.Rd | 1 man/TV.Rd | 1 man/TXBirths2004.Rd | 1 man/Titanic.Rd | 1 man/Turbine.Rd | 1 man/Verizon.Rd | 1 man/Volleyball2009.Rd | 1 man/Walleye.Rd | 1 man/Watertable.Rd | 1 man/corrExerciseA.Rd | 1 man/corrExerciseB.Rd | 1 man/figures |only man/manatees.Rd | 1 man/resampledata.Rd | 8 +- man/wafers.Rd |only 81 files changed, 258 insertions(+), 114 deletions(-)
Title: Multivariate Comparative Tools for Fitting Evolutionary Models
to Morphometric Data
Description: Fits multivariate (Brownian Motion, Early Burst, ACDC, Ornstein-Uhlenbeck and Shifts) models of continuous traits evolution on trees and time series. 'mvMORPH' also proposes high-dimensional multivariate comparative tools (linear models using Generalized Least Squares) based on penalized likelihood. See
Clavel et al. (2015) <DOI:10.1111/2041-210X.12420> and Clavel et al. (2018) <DOI:10.1093/sysbio/syy045>.
Author: Julien Clavel, with contributions from Aaron King, and Emmanuel Paradis
Maintainer: Julien Clavel <julien.clavel@hotmail.fr>
Diff between mvMORPH versions 1.0.9 dated 2017-06-08 and 1.1.0 dated 2018-08-04
DESCRIPTION | 13 MD5 | 89 ++--- NAMESPACE | 19 - NEWS.md | 22 - R/classes_methods.r |only R/estim.r | 76 ++-- R/fun.r | 50 +- R/mvBM.r | 26 - R/mvBMTS.r | 8 R/mvEB.r | 12 R/mvLLIK.r | 6 R/mvOU.r | 56 +-- R/mvOUTS.r | 42 +- R/mvSHIFT.r | 24 - R/mvSIM.r | 94 +++-- R/mvgls.pca.r |only R/mvgls.r |only R/mvmorphPrecalc.r | 2 R/penalized.r |only R/pruning.r | 20 - R/testLRT.r | 21 - R/utils.r | 10 R/zzz.r | 2 README.md | 13 build/vignette.rds |binary inst/doc/How_to_use_mvMORPH.R | 31 + inst/doc/How_to_use_mvMORPH.Rmd | 55 ++- inst/doc/How_to_use_mvMORPH.pdf |binary inst/doc/tutorial_mvMORPH.pdf |binary man/GIC.Rd |only man/LRT.Rd | 29 + man/coef.mvgls.Rd |only man/fitted.mvgls.Rd |only man/halflife.Rd | 2 man/mvBM.Rd | 19 - man/mvEB.Rd | 1 man/mvLL.Rd | 1 man/mvMORPH-package.Rd | 11 man/mvOU.Rd | 31 - man/mvRWTS.Rd | 17 - man/mvSIM.Rd | 1 man/mvgls.Rd |only man/mvgls.pca.Rd |only man/pruning.Rd | 31 + man/residuals.mvgls.Rd |only man/vcov.mvgls.Rd |only src/mvMORPH_init.c | 7 src/sqrtMat.c | 32 + src/weight-matrix-mvmorph.c | 2 tests/tests.r | 658 +++++++++++++++++++-------------------- vignettes/How_to_use_mvMORPH.Rmd | 55 ++- 51 files changed, 934 insertions(+), 654 deletions(-)
Title: Fixed Effects Nonlinear Maximum Likelihood Models
Description: Efficient estimation of multiple fixed-effects maximum likelihood models
with, possibly, non-linear in parameters right hand sides. Standard-errors
can easily be clustered. It also includes tools to seamlessly export (to Latex)
the results of various estimations.
Author: Laurent Berge [aut, cre]
Maintainer: Laurent Berge <laurent.berge@uni.lu>
Diff between FENmlm versions 2.1.1 dated 2018-04-26 and 2.2.0 dated 2018-08-04
FENmlm-2.1.1/FENmlm/inst/doc/Fixed-Effects_ML_Estimation.R |only FENmlm-2.1.1/FENmlm/inst/doc/Fixed-Effects_ML_Estimation.Rmd |only FENmlm-2.1.1/FENmlm/inst/doc/Fixed-Effects_ML_Estimation.html |only FENmlm-2.1.1/FENmlm/vignettes/Fixed-Effects_ML_Estimation.Rmd |only FENmlm-2.2.0/FENmlm/DESCRIPTION | 16 FENmlm-2.2.0/FENmlm/MD5 | 67 FENmlm-2.2.0/FENmlm/NAMESPACE | 45 FENmlm-2.2.0/FENmlm/R/FENmlm.R |only FENmlm-2.2.0/FENmlm/R/ML_Families.R | 836 ---- FENmlm-2.2.0/FENmlm/R/MiscFuns.R | 2023 +++++++--- FENmlm-2.2.0/FENmlm/R/RcppExports.R | 40 FENmlm-2.2.0/FENmlm/R/femlm.R | 718 ++- FENmlm-2.2.0/FENmlm/build/vignette.rds |binary FENmlm-2.2.0/FENmlm/data/trade.RData |binary FENmlm-2.2.0/FENmlm/demo |only FENmlm-2.2.0/FENmlm/inst/CITATION |only FENmlm-2.2.0/FENmlm/inst/NEWS.Rd | 75 FENmlm-2.2.0/FENmlm/inst/doc/FENmlm.R |only FENmlm-2.2.0/FENmlm/inst/doc/FENmlm.Rmd |only FENmlm-2.2.0/FENmlm/inst/doc/FENmlm.html |only FENmlm-2.2.0/FENmlm/man/AIC.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/BIC.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/FENmlm-package.Rd | 35 FENmlm-2.2.0/FENmlm/man/coef.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/confint.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/femlm.Rd | 130 FENmlm-2.2.0/FENmlm/man/fitted.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/formula.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/getFE.Rd | 2 FENmlm-2.2.0/FENmlm/man/logLik.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/model.matrix.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/nobs.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/plot.femlm.allClusters.Rd | 2 FENmlm-2.2.0/FENmlm/man/predict.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/print.femlm.Rd | 57 FENmlm-2.2.0/FENmlm/man/print.femlm.allClusters.Rd | 6 FENmlm-2.2.0/FENmlm/man/res2table.Rd | 52 FENmlm-2.2.0/FENmlm/man/res2tex.Rd | 41 FENmlm-2.2.0/FENmlm/man/resid.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/summary.femlm.Rd | 45 FENmlm-2.2.0/FENmlm/man/trade.Rd | 12 FENmlm-2.2.0/FENmlm/man/update.femlm.Rd |only FENmlm-2.2.0/FENmlm/man/vcov.femlm.Rd |only FENmlm-2.2.0/FENmlm/src/RcppExports.cpp | 92 FENmlm-2.2.0/FENmlm/src/Rcpp_Parallel_femlm_Functions.cpp | 48 FENmlm-2.2.0/FENmlm/vignettes/FENmlm.Rmd |only 46 files changed, 2424 insertions(+), 1918 deletions(-)
Title: Interface to Praat
Description: Read, write and manipulate 'Praat' TextGrid, PitchTier, Pitch and Intensity files <http://www.fon.hum.uva.nl/praat/>.
Author: Tomas Boril [aut, cre]
Maintainer: Tomas Boril <borilt@gmail.com>
Diff between rPraat versions 1.0.8 dated 2017-07-16 and 1.1.2 dated 2018-08-04
DESCRIPTION | 14 MD5 | 68 + NAMESPACE | 14 R/rpraat.R | 1515 +++++++++++++++++++++++++---- R/rpraat_sampleData.R | 40 man/col.read.Rd |only man/detectEncoding.Rd |only man/ifft.Rd | 2 man/it.cut.Rd |only man/it.cut0.Rd |only man/it.interpolate.Rd |only man/it.legendre.Rd |only man/it.legendreDemo.Rd |only man/it.legendreSynth.Rd |only man/it.plot.Rd |only man/it.read.Rd |only man/it.sample.Rd |only man/it.write.Rd |only man/pitch.read.Rd | 6 man/pt.cut.Rd | 6 man/pt.read.Rd | 8 man/pt.write.Rd | 6 man/round2.Rd | 2 man/tg.cut.Rd |only man/tg.cut0.Rd |only man/tg.read.Rd | 6 man/tg.repairContinuity.Rd | 4 man/tg.write.Rd | 6 tests/testthat/-1-6.TextGrid |only tests/testthat/-1-6p.TextGrid |only tests/testthat/0-3.TextGrid |only tests/testthat/0-3p.TextGrid |only tests/testthat/0.5-4.TextGrid |only tests/testthat/0.5-4p.TextGrid |only tests/testthat/1-4.TextGrid |only tests/testthat/1-4p.TextGrid |only tests/testthat/1.25-3.75.TextGrid |only tests/testthat/1.25-3.75p.TextGrid |only tests/testthat/1.5-3.5.TextGrid |only tests/testthat/1.5-3.5p.TextGrid |only tests/testthat/1.IntensityTier |only tests/testthat/3-5.TextGrid |only tests/testthat/3-5p.TextGrid |only tests/testthat/HC101bA.TextGrid |only tests/testthat/H_UTF16.PitchTier |only tests/testthat/H_UTF16.TextGrid |only tests/testthat/H_short_UTF16.TextGrid |only tests/testthat/Hround.PitchTier |only tests/testthat/coll_short.Collection |only tests/testthat/coll_text.Collection |only tests/testthat/cut.TextGrid |only tests/testthat/maminka.IntensityTier |only tests/testthat/maminka_short.IntensityTier |only tests/testthat/sound_UTF16.Pitch |only tests/testthat/test_rpraat.R | 380 +++++++ 55 files changed, 1863 insertions(+), 214 deletions(-)
Title: Perform and Display Google Trends Queries
Description: An interface for retrieving and displaying the information returned
online by Google Trends is provided. Trends (number of hits) over the time as
well as geographic representation of the results can be displayed.
Author: Philippe Massicotte [aut, cre],
Dirk Eddelbuettel [aut]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>
Diff between gtrendsR versions 1.4.1 dated 2018-02-26 and 1.4.2 dated 2018-08-04
DESCRIPTION | 12 +- MD5 | 26 ++--- NAMESPACE | 21 ++-- NEWS.md | 10 + R/gtrends.R | 17 ++- R/related_queries.R | 9 - R/related_topics.R | 9 + R/setHandleParameters.R |only R/zzz.R | 55 ++++++++-- README.md | 14 ++ man/categories.Rd | 34 +++--- man/countries.Rd | 42 ++++---- man/gtrends.Rd | 228 ++++++++++++++++++++++----------------------- man/plot.gtrends.Rd | 52 +++++----- man/setHandleParameters.Rd |only 15 files changed, 304 insertions(+), 225 deletions(-)